Relevant bibliographies by topics / Phylogenetic

Contents

  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Phylogenetic'

Author: Grafiati
Published: 4 June 2021
Last updated: 25 July 2025

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Journal articles on the topic "Phylogenetic"

1

Villalobos, Fabricio, Thiago F. Rangel, and José Alexandre F. Diniz-Filho. "Phylogenetic fields of species: cross-species patterns of phylogenetic structure and geographical coexistence." Proceedings of the Royal Society B: Biological Sciences 280, no. 1756 (2013): 20122570. https://doi.org/10.5281/zenodo.14817416.

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(Uploaded by Plazi for the Bat Literature Project) Differential coexistence among species underlies geographical patterns of biodiversity. Understanding such patterns has relied either on ecological or historical approaches applied separately. Recently, macroecology and community phylogenetics have tried to integrate both ecological and historical approaches. However, macroecology is mostly non-phylogenetic, whereas community phylogenetics is largely focused on local scales. Here, we propose a conceptual framework to link macroecology and community phylogenetics by exploring the evolutionary c
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Liu, Guo-Qing, Lian Lian, and Wei Wang. "The Molecular Phylogeny of Land Plants: Progress and Future Prospects." Diversity 14, no. 10 (2022): 782. http://dx.doi.org/10.3390/d14100782.

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Phylogenetics has become a powerful tool in many areas of biology. Land plants are the most important primary producers of terrestrial ecosystems and have colonized various habitats on Earth. In the past two decades, tremendous progress has been made in our understanding of phylogenetic relationships at all taxonomic levels across all land plant groups by employing DNA sequence data. Here, we review the progress made in large-scale phylogenetic reconstructions of land plants and assess the current situation of phylogenetic studies of land plants. We then emphasize directions for future study.
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Ziegler, Willi, and Charles A. Sandberg. "Conodont Phylogenetic-Zone Concept." Newsletters on Stratigraphy 30, no. 2 (1994): 105–23. http://dx.doi.org/10.1127/nos/30/1994/105.

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LI, JIA-XIN, MAO-QIANG HE, and RUI-LIN ZHAO. "Three new species of Micropsalliota (Agaricaceae, Agaricales) from China." Phytotaxa 491, no. 2 (2021): 167–76. http://dx.doi.org/10.11646/phytotaxa.491.2.6.

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Species diversity of Micropsalliota in China remains poorly known, especially in southwestern China, a hotspot of biodiversity. Based on morphological characteristics and molecular phylogenetic analyses using ITS and nrLSU sequences, three new species named Micropsalliota delicatula, M. dentatomarginata and M. digitatocystis are introduced from China. Phylogenetc analyses results indicated the unique phylogenetic positions of three new species in Micropsalliota. Full descriptions, photo plates, illustrations and a phylogenetic tree to show the placement of three new species are presented.
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Blomquist, Gregory E. "Adaptation, phylogeny, and covariance in milk macronutrient composition." PeerJ 7 (November 13, 2019): e8085. http://dx.doi.org/10.7717/peerj.8085.

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Background Milk is a complicated chemical mixture often studied through macronutrient concentrations of fat, protein, and sugar. There is a long-standing natural history tradition describing interspecific diversity in these concentrations. However, recent work has shown little influence of ecological or life history variables on them, aside from maternal diet effects, along with a strong phylogenetic signal. Methods I used multivariate phylogenetic comparative methods to revisit the ecological and life history correlates of milk macronutrient composition and elaborate on the nature of the phyl
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Zhang, Xiaorong. "Teaching molecular phylogenetics through investigating a real-world phylogenetic problem." Journal of Biological Education 46, no. 2 (2012): 103–9. http://dx.doi.org/10.1080/00219266.2011.634018.

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Duarte, Leandro D. S., Vanderlei J. Debastiani, André V. L. Freitas, and Valério D. Pillar. "Dissecting phylogenetic fuzzy weighting: theory and application in metacommunity phylogenetics." Methods in Ecology and Evolution 7, no. 8 (2016): 937–46. http://dx.doi.org/10.1111/2041-210x.12547.

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Agorreta, Ainhoa, Diego San Mauro, Ulrich Schliewen, et al. "Molecular phylogenetics of Gobioidei and phylogenetic placement of European gobies." Molecular Phylogenetics and Evolution 69, no. 3 (2013): 619–33. http://dx.doi.org/10.1016/j.ympev.2013.07.017.

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FAITH, DANIEL P., FRANK KÖHLER, LOUISE PUSLEDNIK, and J. W. O. BALLARD. "Phylogenies with Corroboration Assessment." Zootaxa 2946, no. 1 (2011): 52. http://dx.doi.org/10.11646/zootaxa.2946.1.11.

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Mooi & Gill (2010) argued that careful character study and well-understood synapomorphies do not have the strong role that they deserve as the basis for evidence in phylogenetics. We agree, but suggest that the problem is even greater. Not only character synapomorphies, but also other forms of phylogenetic evidence, typically do not receive the critical assessment that would support phylogenetic inference. In this paper, our goal is to not simply to highlight problems but to suggest solutions. We will suggest that a stronger role for corroboration assessment in systematics could overcome t
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Shi, Huiyang. "How can statistical models improve the accuracy of phylogenetic tree reconstruction?" Theoretical and Natural Science 66, no. 1 (2024): 68–72. https://doi.org/10.54254/2753-8818/2024.17991.

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When building the phylogenetic tree, current methods for calculating phylogenetic trees often lack the desired level of accuracy. This research paper explores the role of statistical models in enhancing the precision of phylogenetic tree reconstruction. The phylogenetic tree plays an important role in phylogenetic analysis and evolutionary biology. An accurate phylogenetic tree underpins our understanding of the major transitions in evolution, such as the emergence of new body plans or metabolism. Recent advancements in statistical modeling have more elaborate improvements than traditional met
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Dissertations / Theses on the topic "Phylogenetic"

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Jirásková, Kristýna. "Metody rekonstrukce fylogenetických superstromů." Master's thesis, Vysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií, 2012. http://www.nusl.cz/ntk/nusl-219518.

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The phylogenetic reconstruction has noted great development in recent decades. The development of computers and device for sequencing biopolymers have been an enormous amount od phylogenetic data from different sources and different types. The scientists are trying to reconstruct a comlet tree of life from these data. The phylogenetic supertree are theoretically this option because a supertree alow a combination of all information gathered so far – in contras to the phylogenetic trees. This thesis present the method of reconstruction supertrees using average konsensus method.
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Kosíř, Kamil. "Metody rekonstrukce fylogenetických superstromů." Master's thesis, Vysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií, 2014. http://www.nusl.cz/ntk/nusl-220860.

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The Phylogenetic reconstruction has seen great development in the last 30 years. Computers have become more powerful and more generally accessible, and computer algorithms more sophisticated. It comes the effort of scientists to reconstruct the entire tree of life from a large amount of phylogenetic data. Just for this purpose are formed phylogenetic supertrees that allow the combination of all information gathered so far. The aim of this work is to find a method to construct supertree that will give correct results.
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Mecham, Jesse L. "Jumpstarting phylogenetic searches /." Diss., CLICK HERE for online access, 2006. http://contentdm.lib.byu.edu/ETD/image/etd1403.pdf.

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McHugh, Sean W. "Phylogenetic Niche Modeling." Thesis, Virginia Tech, 2021. http://hdl.handle.net/10919/104893.

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Projecting environmental niche models through time is a common goal when studying species response to climatic change. Species distribution models (SDMs) are commonly used to estimate a species' niche from observed patterns of occurrence and environmental predictors. However, a species niche is also shaped by non-environmental factors--including biotic interactions and dispersal barrier—truncating SDM estimates. Though truncated SDMs may accurately predict present-day species niche, projections through time are often biased by environmental condition change. Modeling niche in a phylogenetic f
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Mecham, Jesse Lewis. "Jumpstarting Phylogenetic Searches." BYU ScholarsArchive, 2006. https://scholarsarchive.byu.edu/etd/483.

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Phylogenetic analysis is a central tool in studies of comparative genomics. When a new region of DNA is isolated and sequenced, researchers are often forced to throw away months of computation on an existing phylogeny of homologous sequences in order to incorporate this new sequence. The previously constructed trees are often discarded, and the researcher begins the search again from scratch. The jumpstarting algorithm uses trees from the prior search as a starting point for a new phylogenetic search. This technique drastically decreases search time for large data sets. This kind of analysis i
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Faller, Beáta. "Combinatorial and probabilistic methods in biodiversity theory." Thesis, University of Canterbury. Mathematics and Statistics, 2010. http://hdl.handle.net/10092/3985.

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Phylogenetic diversity (PD) is a measure of species biodiversity quantified by how much of an evolutionary tree is spanned by a subset of species. In this thesis, we study optimization problems that aim to find species sets with maximum PD in different scenarios, and examine random extinction models under various assumptions to predict the PD of species that will still be present in the future. Optimizing PD with Dependencies is a combinatorial optimization problem in which species form an ecological network. Here, we are interested in selecting species sets of a given size that are ecological
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Krig, Kåre. "Methods for phylogenetic analysis." Thesis, Linköping University, Department of Mathematics, 2010. http://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-56814.

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<p>In phylogenetic analysis one study the relationship between different species. By comparing DNA from two different species it is possible to get a numerical value representing the difference between the species. For a set of species, all pair-wise comparisons result in a dissimilarity matrix <em>d</em>.</p><p>In this thesis I present a few methods for constructing a phylogenetic tree from <em>d</em>. The common denominator for these methods is that they do not generate a tree, but instead give a connected graph. The resulting graph will be a tree, in areas where the data perfectly matches a
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Pardi, Fabio. "Algorithms on phylogenetic trees." Thesis, University of Cambridge, 2009. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.611685.

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Wang, Min-Hui. "Classification using phylogenetic trees /." The Ohio State University, 1999. http://rave.ohiolink.edu/etdc/view?acc_num=osu1488190595939375.

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Sundberg, Kenneth A. "Partition Based Phylogenetic Search." BYU ScholarsArchive, 2010. https://scholarsarchive.byu.edu/etd/2583.

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Evolutionary relationships are key to modern understanding of biological systems. Phylogenetic search is the means by which these relationships are inferred. Phylogenetic search is NP-Hard. As such it is necessary to employ heuristic methods. This work proposes new methods based on viewing the relationships between species as sets of partitions. These methods produce more parsimonious phylogenies than current methods.
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Books on the topic "Phylogenetic"

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Bininda-Emonds, Olaf R. P., ed. Phylogenetic Supertrees. Springer Netherlands, 2004. http://dx.doi.org/10.1007/978-1-4020-2330-9.

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Scherson, Rosa A., and Daniel P. Faith, eds. Phylogenetic Diversity. Springer International Publishing, 2018. http://dx.doi.org/10.1007/978-3-319-93145-6.

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Lemey, Philippe, Marco Salemi, and Anne-Mieke Vandamme, eds. The Phylogenetic Handbook. Cambridge University Press, 2009. http://dx.doi.org/10.1017/cbo9780511819049.

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Bakker, Peter, Finn Borchsenius, Carsten Levisen, and Eeva Sippola, eds. Creole Studies – Phylogenetic Approaches. John Benjamins Publishing Company, 2017. http://dx.doi.org/10.1075/z.211.

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Wägele, Johann Wolfgang. Foundations of phylogenetic systematics. Pfeil, 2005.

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1968-, Salemi Marco, Vandamme Anne-Mieke 1960-, and Lemey Philippe, eds. The phylogenetic handbook: A practical approach to phylogenetic analysis and hypothesis testing. 2nd ed. Cambridge University Press, 2009.

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1968-, Salemi Marco, Vandamme Anne-Mieke 1960-, and Lemey Philippe, eds. The phylogenetic handbook: A practical approach to phylogenetic analysis and hypothesis testing. 2nd ed. Cambridge University Press, 2009.

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Bickel, David R. Phylogenetic Trees and Molecular Evolution. Springer International Publishing, 2022. http://dx.doi.org/10.1007/978-3-031-11958-3.

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Williams, David, Michael Schmitt, and Quentin Wheeler, eds. The Future of Phylogenetic Systematics. Cambridge University Press, 2016. http://dx.doi.org/10.1017/cbo9781316338797.

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Kluge, Nikita. The Phylogenetic System of Ephemeroptera. Springer Netherlands, 2004. http://dx.doi.org/10.1007/978-94-007-0872-3.

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Book chapters on the topic "Phylogenetic"

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Gooch, Jan W. "Phylogenetic." In Encyclopedic Dictionary of Polymers. Springer New York, 2011. http://dx.doi.org/10.1007/978-1-4419-6247-8_14499.

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Rieppel, Olivier. "The Evolutionary Turn in Comparative Anatomy." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-1.

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Rieppel, Olivier. "Epilogue." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-10.

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Rieppel, Olivier. "Of Parts and Wholes." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-2.

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Rieppel, Olivier. "The Turn against Haeckel." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-3.

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Rieppel, Olivier. "The Rise of Holism in German Biology." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-4.

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Rieppel, Olivier. "The Rise of German (“Aryan”) Biology." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-5.

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Rieppel, Olivier. "Ganzheitsbiologie." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-6.

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Rieppel, Olivier. "The Ideological Instrumentalization of Biology." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-7.

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Rieppel, Olivier. "A New Beginning." In Phylogenetic Systematics. CRC Press, 2016. http://dx.doi.org/10.1201/b21805-8.

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Conference papers on the topic "Phylogenetic"

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Kaur, Amandeep, and Manjot Kaur. "Construction Of Phylogenetic Tree Using UPGMA Method." In 2024 7th International Conference on Contemporary Computing and Informatics (IC3I). IEEE, 2024. https://doi.org/10.1109/ic3i61595.2024.10828834.

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STANLEY, SCOTT, and BENJAMIN A. SALISBURY. "PHYLOGENETIC GENOMICS AND GENOMIC PHYLOGENETICS." In Proceedings of the Pacific Symposium. WORLD SCIENTIFIC, 2001. http://dx.doi.org/10.1142/9789812799623_0047.

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Daskalakis, Constantinos, Elchanan Mossel, and Sébastien Roch. "Optimal phylogenetic reconstruction." In the thirty-eighth annual ACM symposium. ACM Press, 2006. http://dx.doi.org/10.1145/1132516.1132540.

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Snell, Q., M. Whiting, M. Clement, and D. McLaughlin. "Parallel Phylogenetic Inference." In ACM/IEEE SC 2000 Conference. IEEE, 2000. http://dx.doi.org/10.1109/sc.2000.10062.

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Bansal, Mukul S. "Phylogenetic uncertainty and transmission network inference: Lessons from phylogenetic reconciliation." In 2016 IEEE 6th International Conference on Computational Advances in Bio and Medical Sciences (ICCABS). IEEE, 2016. http://dx.doi.org/10.1109/iccabs.2016.7802785.

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Berry, Vincent, and David Bryant. "Faster reliable phylogenetic analysis." In the third annual international conference. ACM Press, 1999. http://dx.doi.org/10.1145/299432.299457.

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Katariya, Priyank Raj, and Sathish S. Vadhiyar. "Phylogenetic Predictions on Grids." In 2009 5th IEEE International Conference on e-Science (e-Science). IEEE, 2009. http://dx.doi.org/10.1109/e-science.2009.17.

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Hwa, Kuo-Yuan, Hsing-Hsang Hung, and Chen-Hsing Chen. "Phylogenetic Analysisof Trichomonade Xylosyltransferases." In 2007 Frontiers in the Convergence of Bioscience and Information Technologies. IEEE, 2007. http://dx.doi.org/10.1109/fbit.2007.109.

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Hayden, James E. "Phylogenetic prediction: Analytical considerations." In 2016 International Congress of Entomology. Entomological Society of America, 2016. http://dx.doi.org/10.1603/ice.2016.110120.

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Blackburn, Michael B. "Phylogenetic analysis of insecticidalChromobacterium." In 2016 International Congress of Entomology. Entomological Society of America, 2016. http://dx.doi.org/10.1603/ice.2016.112826.

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Reports on the topic "Phylogenetic"

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Nierzwicki-Bauer, S. A. Phylogenetic relationships among subsurface microorganisms. Office of Scientific and Technical Information (OSTI), 1991. http://dx.doi.org/10.2172/6106595.

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Nierzwicki-Bauer, S. A. Phylogenetic relationships among subsurface microorganisms. Progress report. Office of Scientific and Technical Information (OSTI), 1991. http://dx.doi.org/10.2172/10106325.

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Bruice, Thomas C. DNG and RNG Phylogenetic Single Cell Probes. Defense Technical Information Center, 1999. http://dx.doi.org/10.21236/ada360479.

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Pace, Norman R. Phylogenetic Analysis of Marine Picoplankton Using rRNA Sequences. Defense Technical Information Center, 1989. http://dx.doi.org/10.21236/ada209595.

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Lapedes, A. S., B. G. Giraud, L. C. Liu, and G. D. Stormo. Correlated mutations in protein sequences: Phylogenetic and structural effects. Office of Scientific and Technical Information (OSTI), 1998. http://dx.doi.org/10.2172/296863.

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Pace, Norman R. Phylogenetic Analysis of Marine Picoplankton Using Tau RNA Sequences. Defense Technical Information Center, 1991. http://dx.doi.org/10.21236/ada254451.

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Nierzwicki-Bauer, S. A. Phylogenetic relationships among subsurface microorganisms. Project technical progress report. Office of Scientific and Technical Information (OSTI), 1993. http://dx.doi.org/10.2172/10171574.

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Ksepka, Daniel, and Kristin Lamm. Systematics and Biodiversity Conservation. American Museum of Natural History, 2012. http://dx.doi.org/10.5531/cbc.ncep.0024.

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This exercise uses a fictional group of turtles to demonstrate how to implement cladistic methodology. Using a step-by-step guide, students work to find the most parsimonious cladogram for these fictional turtles. Part I involves delineating characters and building a most parsimonious cladogram based on the distribution of character states, while Part II presents additional challenges by introducing homoplasy. This exercise is designed to familiarize students with the concepts of phylogeny and cladistics, expand their skills of phylogenetic analysis, and use phylogenetic information to determi
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Chaves-Acuña, Wagner, Eduardo Boza-Oviedo, Javier Antonio Zúniga Betanco, et al. Supplemental material for 'Phylogenetic relationships of two poorly known Honduran treefrogs (Hylidae, Hylinae, Hylini) : review, revisions, and three new species (American Museum novitates, no. 4016)'. American Museum of Natural History, 2024. http://dx.doi.org/10.5531/sd.sp.67.

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Supplemental material for 'Phylogenetic relationships of two poorly known Honduran treefrogs (Hylidae, Hylinae, Hylini) : review, revisions, and three new species (American Museum novitates, no. 4016)' - https://hdl.handle.net/2246/7362
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Balkwill, D. L., and R. H. Reeves. Physiological and phylogenetic study of microbes from geochemically and hydrogeologically diverse subsurface environments. Office of Scientific and Technical Information (OSTI), 1991. http://dx.doi.org/10.2172/5026959.

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